HsaINT0120879 @ hg38
Intron Retention
Gene
ENSG00000105717 | PBX4
Description
PBX homeobox 4 [Source:HGNC Symbol;Acc:HGNC:13403]
Coordinates
chr19:19564933-19569584:-
Coord C1 exon
chr19:19569449-19569584
Coord A exon
chr19:19565090-19569448
Coord C2 exon
chr19:19564933-19565089
Length
4359 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACG
5' ss Score
7.66
3' ss Seq
TGACTCCTGTGTGTCCGCAGGTC
3' ss Score
13.06
Exon sequences
Seq C1 exon
GCGCAAGCGGCGGAATTTCAGCAAGCAGGCGACGGAAGTGCTGAATGAGTATTTTTACTCCCATCTGAACAACCCTTACCCCAGCGAAGAAGCCAAAGAAGAGCTGGCCAGGAAGGGCGGCCTCACCATCTCCCAG
Seq A exon
GTGACGTTCTCTCCTGCCACGTCTCGCCACGCCTGGGAGGAGTGGATGACTAGGTCCCATGAGGACACCCAGGGAAGTTTGTTAAATGTGTGCAGAGGCCAGGCATGGCTGCTGGAATCCCAGCACTTTGGGAGGATGAGGTAGGAGGGTCGCTTGAGGCCAGGAGTTCGAGACCAGCCTGGGCAACATAGTGAGACACTGTCTCTACAAAAAATTTAAAAAATTAGCTGGGCTTGGTGGTGTGCACCTGTGGTCTCAGCTCCTTCGGATGCTGAGGTGGAAGGATCACTTGAGCCCAGGAGGGTGAGGCTGCAGTGAGCTATGATGGCGCCACTGCATTCCAGCCTGGGTGACAGAGTGAGATCCTATCTCTGAAAAACAAAAAAAGTGTGGAACAGGAGCCAAGTCTCCAGGCTCTGAGTCAGCCAGGCCAGCTCAGATCCAGGCTCTGCATTACAAATGTGGGACTCCAGCGCTCTCCCCGTTCATCTGTGAGGCAGGGGTGCAAGTGTACCCACAGAGAGACCTGAGGACTTCCTGAGCGATGCAGATGGAATGCGAGGTCCCAGAGGTGATGCTGTGGAGTGTGAGCTCCCTGAGGGACACAGACGGAGTGTGAGCTCCCTGAGGGTTACAGACAGAGTGTGAACTCCCTGAGGGATACAGACAGAGTATGAGCTCCCTGAGGGATACAGATGGAGTGTGAGCTCCCTGAGGGATACAGACAGAGTGTGAGCTCCCTGAGGGTTACAGACAGAGTATGAGCTCCCTGAGGGATACAGACGGAGTGTGAGCTTCCTGAGGGATACAGATGGAGTGTGAGCTCCTTGAGGGATACAGATGGAGTGTGAGTTCCCTGAGGGATACAGATGGAGTGTGAGCTCCTTGAGGGATACAGATGGAGTGTGAGTTCCCTGAGGGATACAGATGGAGTGTGAGCTCCTTGAGGGATACAGATGGAGTGTGAGTTCCCTGAGGTGACTGAGGTGGAGTGTGAGCTCCCTGAGGGATACAGATGGAGTGTGAGCTCCCTGAGGGATACAGATGGAGTGTGAGCTCCCTGAGGGATACTGATAGAGTGTGAGCTCCCTGAGGGATACAGATGGAGTGTGAGCTCCCTGAGGGATACTGATAGAGTGTGAGCTCCCTGAGGGATACAGATGGAGTGTGAGCTCCCTGAGGGTTACAGATGGAGTGTGAGCTCCCTGAGGGATACAGATGGAGTGTGAGCTCCCTGAGGGATACTGGTAGAGTGTGAGCTCCCTGAGGGATACAGATGGAGTGTGAGCTCCCTGAGGGTTACAGATGGAGTGTGAGCTCCCTGAGGGATACAGATGGAGTGTGAGCTCCCTGAGGGTTACAGATAGAGTGTGAGCTCCCTGAGGGATACTGATGGAATGTGAGCTCCCTGAGGGATAAAGATGGAGTGTGAGTTCCCTGAGGTGATTGAGGTGGAGTGTGAGCTCCCTGAGGGACAGAGATGGAGTGTGAGCTCCCTGAGAGATACAGATGGAGTGTGAGCTGCCTGAGGGATACAGGTGGGGTGTGAGCTCCCTGAGGGATACAGATGGAGTGTGAGCTCCCTGAGGTGATTGAGATGGAGTGTGAGTTCCCTGGGGGATGCTGTGGAGTGTGAGCCCCCTGAGGTGACGTGGTAGAGAGTGTGAGCTCCCTGACTCTATAGCCTGGTAGGCAGCCACCAGTGTCCTCTGTGGAACTGGGGGTGAAAGAGGGAGACACTAAGACCAAGAGGCTAAGAAATATTTCCGAAGGTTTTAACATGGAAACAGTAAGTCCAGGCAGCCTATGGCAGCAAGCCAGGTCCAGGCCATACCCCCGTGGCAGCATGAGTGTGTGGAACAGGGCCTGGGTGCCGCCCTCCCACCTGGGCAGGCACAGCCCCACAGCCTCTATGGCAGCAGGAATGGCAGGTGCTGACCCACAGCATGGCTTGCTGCATGTCACCACAGCCCTCCCTACTTTGCAGTTGGAGGGGCTGAGTTTCTAGTCCTTCACCACCATGCTCTGCTCCAACCCAGGCTAAGTCCAGTCAAGTCTCTGTGACAGAGAGCAATTGGAACCCCTCGGGGTCACGCAGGCAGCAAAACATCCTGAGGTCATAGTCACATATGACTTTGCTCATCGGGATCTGCTGTGGTGTCAGAAACAAGGCCAGAGCTGGAGCAAGGGGCTGCGCCTCTGGGTCTTCAAGGCCCCTGGAGAAGCGTGAGACATTTGGCCCCCAAGGAACAATTGTCTGGAGGACAACCAGGGCTGCTTCAACCAGGATGGAGCCTCTGGGGCCTCCCATGTGGATCAAGAGAAGGCTGCTCACACCCCCGGGGTAGGCAGACACTATGTTTGGAACAGAGAGCACACAGACAGGGATCCTTCTTTTTATACTTAACATTGCAAGGATAATGTAAGTACACCAAATGTTGGCCAGGCATGGTGGCTCATGCCTGAAATCCCAGCACTTTGGAGGCCAAGGCGGACGAATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTGGCTACTGGAAATACAAAAATTAGCCAGGCTTGGTGGCACATGCCTGCAATCCCGCTACTGGGGAGGCTGAGGCAGGAGAATCATTTGAACCAGGGAGGCGGAGGTTGCAGTGAGTTGAGGTCGCACCACTGCACTCCACACTCCAGCCTGGGTGACAGAGTGAGACTCCGTCTCCGAAAAAAAAAAAAAAAAAAAGTACAAAAATTAGCCAGGCTTGGTAGCACGTGCCTGTAGTCCCAGCTACTGGTGAGGCTGAGGCAAGAGAATCACTTGAATCTGGGAGGCAGAGGTTGCAGTGAGCTGAGATCGCACCGCTGCACTCCAGCCTGGGTGACAGAGTGAGAAAAAAATGTTTGAAGTAGCAAAGGTCATCCACAATCCTCTTCCATCCCTCAGCTGTTTCATTTCTGTGTGTTATTATACTATACGTTTATTTTACTTGCTTTGGGATACTGAAATGTGGCCCTGGATGGACGTCTCCATGCCTGTAGGAAGGCGCTGGCCCTGGGGTGCTCACCCATGTGAATCTGCCCAGGGGACATTTTTGTTGTCACGACTAGAGAAGGGAAGTGCTCCTGGCACCCAGTGGGTGCCAAGGATACCGCTCAGCACCCTGCAGTGTACAGGACAGCCCCCACAGAGCAGATGGAGCCCAAGCATCAGCAGTGCCACCAAAGGTGACAAGCCCCTCCCTGGGGGACTCCAGTGCCAGTTTGCAGTCAGAGCTGGGCTGATTCCACCTTGGCCATGGACTAGCTCCTTTTTCTCCTGCCTCTGCTTTCTTACAGCAGGGACGATAACAGCTGCCTCCCAGGTCCTCATGAGGATGAGGCAGAATGATATATGAGGCTGGGCCTGGAATCCCAGCATTTTGGGAGGCCAGGGCGGGAGGAACTCTCAAGCCCAGGGGTTTGAGACCAGCCTGGGCAACAGAGCGAGACCCTATCTCTAAAAAAAAAGAAAAAATATATTTTTTTTTCTGAGACAGGGTCTCACTCTGTTGCCCAGGCTAAATTGCAGTGCGATCTTGGCTCACTGCAACCTCTGCCTCCCAGGTTCAAGTGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCATGTGCCACTGTGTCCAGCTAATATTTGTATTATTAGTAGAGATGGGGTTTCTCCATGTTGTCCAGGCTGGTCTCGAACTCCTGACCTCAGATGATCCCCCCACCTCAGCCTCCCAAAGTGCTGAGATTACAGGCGTGAGCCACCACGCCCGGCCAAAAAACCTTTTTTTAATTAAAATTAAGAAAAATATATGAATATATGAGAAGTGCTTATCCTAGCACCTGGTACATTCCAACTACCCCTTCAGAGTTCACCTTGTTTTCATTTGATAAGTTTGGGATTCGATCGCAGTTACTGGGTCCCCAGGTCTCCCTGGCTCTCACTTTTCCTGAAGAGAACACGGAACGTAACCTGCCGCCTGCTGCATGGCAGCCAGAGGCGCTGTCCCTCCCGGCCCACCTCAGACAGTCTTGTTTTCCTTCCAGCCCCTTCCCAGGTTCAGGTTCCAGCAACATCCAGTTTTAGGCAGCAGAGTTCTAAGACACGCCAGCTCCAGGGTGTCCTCAACCCATGTGGACATCTCCCTGGGTCCGTGGTTCAGAGGGCGCCACCTTCTCAGTCCCAGACTCTTCATAGCCCCAGGGTGCAGTGTTGTCTTCTAAGGCAGTGGGAGCAACGGGCACCCCAGGGAACCCACAGACTGCGTCGTGTCTCAGAAGTCGCTGGGTCAGCTCCTCCAGTGACTCCTGTGTGTCCGCAG
Seq C2 exon
GTCTCTAACTGGTTTGGCAACAAAAGAATCCGGTATAAAAAGAACATGGGGAAGTTTCAAGAAGAGGCTACCATTTACACGGGTAAAACGGCTGTGGATACCACGGAAGTTGGGGTCCCAGGGAACCACGCCAGCTGCCTGTCAACACCTAGCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000105717:ENST00000251203:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.239 A=NA C2=0.528
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(75.0=97.8)
A:
NA
C2:
PF0004624=Homeobox=PD(21.7=24.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development